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Conserved domains on  [gi|527037377|ref|WP_020884031|]
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MULTISPECIES: GntR family transcriptional regulator [Enterobacter]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK11414 super family cl32689
GntR family transcriptional regulator;
8-222 9.17e-73

GntR family transcriptional regulator;


The actual alignment was detected with superfamily member PRK11414:

Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 220.13  E-value: 9.17e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377   8 EKAQRISLTMQVELSLKGALITGSLKPGARLITKEIADKLGTSITPVREALLRLVSSGALHATPAQAFLVPEVTLERYNE 87
Cdd:PRK11414   5 EKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  88 INAIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIGP 167
Cdd:PRK11414  85 INRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWVRMGP 164

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 527037377 168 CMNYLHQELN--DIKVSTYHYAELLSALERRDVDGSQKAIETLIDEANTLLQRQYFN 222
Cdd:PRK11414 165 SLHYLYEAINpaELREHIENYRLLLAALKAKDKEGCRHCLAEIMQQNVAILYQQYNR 221
 
Name Accession Description Interval E-value
PRK11414 PRK11414
GntR family transcriptional regulator;
8-222 9.17e-73

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 220.13  E-value: 9.17e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377   8 EKAQRISLTMQVELSLKGALITGSLKPGARLITKEIADKLGTSITPVREALLRLVSSGALHATPAQAFLVPEVTLERYNE 87
Cdd:PRK11414   5 EKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  88 INAIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIGP 167
Cdd:PRK11414  85 INRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWVRMGP 164

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 527037377 168 CMNYLHQELN--DIKVSTYHYAELLSALERRDVDGSQKAIETLIDEANTLLQRQYFN 222
Cdd:PRK11414 165 SLHYLYEAINpaELREHIENYRLLLAALKAKDKEGCRHCLAEIMQQNVAILYQQYNR 221
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
10-220 2.01e-42

DNA-binding transcriptional regulator, GntR family [Transcription];


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 142.75  E-value: 2.01e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  10 AQRISLTMQVELSLKGALITGSLKPGARLITKEIADKLGTSITPVREALLRLVSSGALHATPAQAFLVPEVTLERYNEIN 89
Cdd:COG1802    7 LRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRELY 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  90 AIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIGPCM 169
Cdd:COG1802   87 EVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRRYR 166

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 527037377 170 NYLHQELNDIKVSTYHYAELLSALERRDVDGSQKAIETLIDEANTLLQRQY 220
Cdd:COG1802  167 RLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEAL 217
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 87-206 1.87e-14

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 67.01  E-value: 1.87e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377   87 EINAIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIG 166
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 527037377  167 PCMNYLHQELNDIKVSTYHYAELLSALERRDVDGSQKAIE 206
Cdd:pfam07729  81 RLRRLLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMR 120
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
19-77 5.61e-08

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 47.95  E-value: 5.61e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377    19 VELSLKGALITGSLKPGARLIT-KEIADKLGTSITPVREALLRLVSSGALHATPAQAFLV 77
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSeRELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 14-65 6.70e-08

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 47.83  E-value: 6.70e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 527037377  14 SLTMQVELSLKGALITGSLKPGARLIT-KEIADKLGTSITPVREALLRLVSSG 65
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSeRELAEELGVSRTTVREALRELEAEG 53
 
Name Accession Description Interval E-value
PRK11414 PRK11414
GntR family transcriptional regulator;
8-222 9.17e-73

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 220.13  E-value: 9.17e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377   8 EKAQRISLTMQVELSLKGALITGSLKPGARLITKEIADKLGTSITPVREALLRLVSSGALHATPAQAFLVPEVTLERYNE 87
Cdd:PRK11414   5 EKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  88 INAIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIGP 167
Cdd:PRK11414  85 INRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWVRMGP 164

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 527037377 168 CMNYLHQELN--DIKVSTYHYAELLSALERRDVDGSQKAIETLIDEANTLLQRQYFN 222
Cdd:PRK11414 165 SLHYLYEAINpaELREHIENYRLLLAALKAKDKEGCRHCLAEIMQQNVAILYQQYNR 221
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
10-220 2.01e-42

DNA-binding transcriptional regulator, GntR family [Transcription];


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 142.75  E-value: 2.01e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  10 AQRISLTMQVELSLKGALITGSLKPGARLITKEIADKLGTSITPVREALLRLVSSGALHATPAQAFLVPEVTLERYNEIN 89
Cdd:COG1802    7 LRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRELY 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  90 AIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIGPCM 169
Cdd:COG1802   87 EVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRRYR 166

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 527037377 170 NYLHQELNDIKVSTYHYAELLSALERRDVDGSQKAIETLIDEANTLLQRQY 220
Cdd:COG1802  167 RLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEAL 217
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 87-206 1.87e-14

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 67.01  E-value: 1.87e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377   87 EINAIRKQLEPMAVAAACQHMTENKLEVLRKLSETFHEAMRNGHVQQALHANRIFRFTLYQYAEMPTLSALIEQLWVRIG 166
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 527037377  167 PCMNYLHQELNDIKVSTYHYAELLSALERRDVDGSQKAIE 206
Cdd:pfam07729  81 RLRRLLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMR 120
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 15-77 1.38e-09

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 52.62  E-value: 1.38e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 527037377   15 LTMQVELSLKGALITGSLKPGARLIT-KEIADKLGTSITPVREALLRLVSSGALHATPAQAFLV 77
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSeRELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
19-77 5.61e-08

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 47.95  E-value: 5.61e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377    19 VELSLKGALITGSLKPGARLIT-KEIADKLGTSITPVREALLRLVSSGALHATPAQAFLV 77
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSeRELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 14-65 6.70e-08

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 47.83  E-value: 6.70e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 527037377  14 SLTMQVELSLKGALITGSLKPGARLIT-KEIADKLGTSITPVREALLRLVSSG 65
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSeRELAEELGVSRTTVREALRELEAEG 53
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 23-103 4.11e-04

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 40.26  E-value: 4.11e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 527037377  23 LKGALITGSLKPGARLITKEIADKLGTSITPVREALLRLVSSGALHATPAQAFLVPEVTLERYNEINAIRKQLEPMAVAA 102
Cdd:PRK11534  16 LKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDIFDARANMEAMLVSL 95


                 .
gi 527037377 103 A 103
Cdd:PRK11534  96 A 96
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 6-71 6.99e-04

DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain [Transcription, Amino acid transport and metabolism]; DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain is part of the Pathway/BioSystem: Lysine biosynthesis


Pssm-ID: 440781 [Multi-domain]  Cd Length: 471  Bit Score: 40.20  E-value: 6.99e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 527037377   6 HLEKAQRISLTMQVELSLKGALITGSLKPGARLITK-EIADKLGTSITPVREALLRLVSSGALHATP 71
Cdd:COG1167    4 RLDRDSSGPLYLQLADALREAILSGRLPPGDRLPSSrELAAQLGVSRSTVVRAYEELEAEGLIESRP 70
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
12-65 2.26e-03

DNA-binding transcriptional regulator, GntR family [Transcription];


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 37.92  E-value: 2.26e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 527037377  12 RISLTMQVELSLKGALITGSLKPGARLIT-KEIADKLGTSITPVREALLRLVSSG 65
Cdd:COG2188    3 PVPLYLQIADALRERIESGELPPGDRLPSeRELAEEFGVSRMTVRKALDELVEEG 57
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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